Knowledge-based design of a soluble bacteriorhodopsin

Protein Engineering

Volumn 10, Issue 10, 1997, Pages 1175-1190

  Gibas, Cynthia ^a   Subramaniam, Shankar ^a  

^a UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

Author keywords

Bacteriorhodopsin; Membrane protein solubility; Rational protein design

Indexed keywords

BACTERIORHODOPSIN;

ARTICLE; CRYSTALLIZATION; MOLECULAR MODEL; PRIORITY JOURNAL; PROTEIN MODIFICATION; PROTEIN STRUCTURE;

EID: 0031471934     PISSN: 02692139     EISSN: None     Source Type: Journal    
DOI: 10.1093/protein/10.10.1175     Document Type: Article

References (54)

1. Ahl,P.L., Stern,L.J., During,D., Mogi,T., Khorana,H.G. and Rothschild,K.J. (1988) J. Biol. Chem., 263, 13594-13601.
2. Altschul,S.F., Gish,W., Miller,W., Myers,E.W. and Lipman,D.J. (1990) J. Mol. Biol., 215, 403-410.
3. Betz,S.F., Bryson,J.W. and DeGrado,W.F. (1995) Curr. Opin. Struct. Biol., 5, 457-463.
4. Bianchi,E., Venturini,S., Pessi,A., Tramontano,A. and Sollazzo,M. (1994) J. Mol. Biol., 236, 649-659.
5. Brooks,B.R., Bruccoleri,R.E., Olafson,B.D., States,D.J., Swaminathan,S. and Karplus,M. (1982) J. Comput. Chem., 4, 187-217.
6. Brown,L.S., Sasaki,J., Kandori,H., Maeda,A., Needleman,R. and Lanyi,J.K. (1995) J. Biol. Chem., 270, 27122-27126.
7. Choma,C.T., Lear,J.D., Nelson,M.J., Dutton,P.L., Robertson,D.E. and DeGrado,W.F. (1994) J. Am. Chem. Soc., 116, 856-865.
8. Davis,M.E., Madura,J.D., Luty,B.A. and McCammon,J.A. (1991) Comp. Phys. Commun., 62, 187-197.
9. Delaney,J.K., Schweiger,U. and Subramaniam,S. (1995) Proc. Natl Acad. Sci. USA, 92, 11120-11124.
10. Edelsbrunner,H., Facello,M., Fu,P. and Liang,J. (1995) In Proceedings of the 28th Annual Hawaii International Conference on System Science, pp. 256-264.
11. Eisenberg,D., Bowie,J.U., Luthy,R. and Choe,S. (1992) Faraday Discuss., 93, 25-34.
12. Ferrando,E., Schweiger,U. and Oesterhelt,D. (1993) Gene, 125, 41-47.
13. Fischer,W.B., Sonar,S., Marti,T., Khorana,H.G. and Rothschild,K.J. (1994) Biochemistry, 33, 12757-12762.
14. Friedman,N., Druckmann,S., Lanyi,J., Needleman,R., Lewis,A., Ottolenghi,M. and Sheves,M. (1994) Biochemistry, 33, 1971-1976.
15. Govindjee,R., Kono,M., Balashov,S.P., Imasheva,E., Sheves,M. and Ebrey,T.G. (1995) Biochemistry, 34, 4828-4838.
16. Hackett,N.R., Stern,L.J., Chao,B.H., Kronis,K.A. and Khorana,H.G. (1987) J. Biol. Chem., 262, 9277-9284.
17. Harper,E.T. and Rose,G.D. (1993) Biochemistry, 32, 7605-7609.
18. Hecht,M.H., Richardson,J.S., Richardson,D.C. and Ogden,R.C. (1990) Science, 249, 884-891.
19. Henderson,R., Baldwin,J.M., Ceska,T.A., Zemlin,F., Beckmann,E. and Downing,K.H. (1990) J. Mol. Biol., 213, 899-929.
20. Jang,D-J., El-Sayed,M.A., Stern,L.J., Mogi,T. and Khorana,H.G. (1990) Proc. Natl Acad. Sci. USA, 87, 4103-4107.
21. Jorgensen,W.L. and Tirado-Rives,J. (1988) J. Am. Chem. Soc., 110, 1657-1666.
22. Kabsch,W. and Sander,C. (1983) Biopolymers, 22, 2577-2637.
23. Kandori,H., Yamazaki,Y., Sasaki,J., Needleman,R., Lanyi,J.K. and Maeda,A. (1995) J. Am. Chem. Soc., 117, 2118-2119.
24. Kataoka,M., Kamikubo,H., Tokunaga,F., Brown,L.S., Yamazaki,Y., Maeda,A., Sheves,M., Needleman,R. and Lanyi,J.K. (1994) J. Mol. Biol., 243, 621-638.
25. Khorana,H.G. (1993) Proc. Natl Acad. Sci. USA, 90, 1166-1171.
26. Khorana,H.G. et al. (1988) In Sarma,R.H. and Sarma,M.H. (eds), Structure and Expression Volume 1: From Proteins to Ribosomes. Adenine Press, New York, pp. 1-23.
27. Kraulis,P.J. (1991) J. Appl. Crystallogr., 24, 946-950.
28. Krebs,M.P. and Khorana,H.G. (1993) J. Bacteriol., 175, 1555-1560.
29. Lanyi,J.K. (1995) Biophys. Chem., 56, 143-151.
30. Laskowski,R.A., MacArthur,M.W., Moss,D.S. and Thornton,J.M. (1993) J. Appl. Crystallogr., 26, 283-291.
31. Lovejoy,B., Choe,S., Cascio,D., McCrorie,D.K., DeGrado,W.F. and Eisenberg,D. (1993) Science, 259, 1288-1293.
32. Luthy,R., Bowie,J.U. and Eisenberg,D. (1992) Nature, 356, 83-85.
33. Mogi,T., Stern,L.J., Chao,B.H. and Khorana,H.G. (1989a) J. Biol. Chem., 264, 14192-14196.
34. Mogi,T., Marti,J. and Khorana,H.G. (1989b) J. Biol. Chem., 264, 14197-14201.
35. Munson,M., O'Brien,R., Sturtevant,J.M. and Regan,L. (1994) Protein Sci., 3, 2015-2022.
36. Nordlund,P. and Eklund,H. (1993) J. Mol. Biol., 232, 123-132.
37. Otto,H., Marti,T., Holz,M., Mogi,T., Lindau,M., Khorana,H.G. and Heyn,M.P. (1989) Proc. Natl Acad. Sci. USA, 86, 9228-9232.
38. Otto,H., Marti,T., Holz,M., Mogi,T., Stern,L.J., Engel,F., Khorana,H.G. and Heyn,M.P. (1990) Proc. Natl Acad. Sci. USA, 87, 1018-1022.
39. Pompejus,M., Friedrich,K., Teufel,M. and Fritz,H.J. (1993) Eur. J. Biochem., 211, 27-35.
40. Quinn,T.P., Tweedy,N.B., Williams,R.W., Richardson,J.S. and Richardson,D.C. (1994) Proc. Natl Acad. Sci. USA, 91, 8747-8751.
41. Regan,L. and Clarke,N.D. (1990) Biochemistry, 29, 10878-10883.
42. Renthal,R., McMillan,K., Guerra,L., Garcia,M.N., Rangel,R. and Jen,C.M. (1995) Biochemistry, 34, 7869-7878.
43. Richardson,J.S. and Richardson,D.C. (1988) Science, 240, 1648-1652.
44. Robertson,D.E., Farid,R.S., Moser,C.C., Urbauer,J.L., Mulholland,S.E., Pidikiti,R., Lear,J.D., Wand,A.J., DeGrado,W.F. and Dutton,P.L. (1994) Nature, 368, 425-431.
45. Rothschild,K.J., Marti,T., Sonar,S., He,Y.W., Rath,P., Fischer,W. and Khorana,H.G. (1993) J. Biol. Chem., 268, 27046-27052.
46. Sali,A. and Blundell,T. (1993) J. Mol. Biol., 234, 779-815.
47. Schafmeister,C.E., Miercke,L.J.W. and Stroud,R.M. (1993) Science, 262, 734-738.
48. Schiffer,M., Chang,C.-J. and Stevens,F.J. (1992) Protein Engng, 5, 213-214.
49. Seale,J.W., Srinivasan,R. and Rose,G.D. (1994) Protein Sci., 3, 1741-1745.
50. Stern,L.J., Ahl,P.L., Marti,T., Mogi,T., Dunach,M., Berkowitz,S., Rothschild,K.J. and Khorana,H.G. (1989) Biochemistry, 28, 10035-10042.
51. Stern,L.J. and Khorana,H.G. (1989) J. Biol. Chem., 264, 14202-14208.
52. Wishart,D., Willard,L. and Sykes,B. (1992) VADAR 0.9. University of Alberta.
53. Yamazaki,Y., Sasaki,J., Hatanaka,M., Kandori,H., Maeda,A., Needleman,R., Shinada,T., Yoshihara,K., Brown,L.S. and Lanyi,J.K. (1995a) Biochemistry, 34, 577-582.
54. Yamazaki,Y. et al. (1995b) Biochemistry, 34, 7088-7093.